Table 1.
Table of Free-Energy Cost of Forming a Two-Way Junction in kcal/mol as a Function of the 5′ and 3′ Junction Lengths in nt, and , Respectively
| 5′ Loop Length (nt), b | 3′ Loop Length (nt), c | ||||||||
| 0 | 1 | 2 | 3 | 4 | 5 | 6 | 7 | ||
| 0 | 5.22 (0.03) | 5.62 (0.04) | 6.07 (0.06) | 6.16 (0.07) | 6.45 (0.09) | 6.57 (0.10) | 6.53 (0.09) | 6.65 (0.11) | |
| 1 | 5.77 (0.05) | 5.98 (0.06) | 6.20 (0.07) | 6.40 (0.09) | 6.47 (0.09) | 6.70 (0.11) | 6.61 (0.10) | 6.72 (0.11) | |
| 2 | 5.86 (0.05) | 6.12 (0.07) | 6.27 (0.08) | 6.55 (0.10) | 6.58 (0.10) | 6.75 (0.12) | 6.79 (0.12) | 6.85 (0.13) | |
| 3 | 6.11 (0.07) | 6.38 (0.08) | 6.68 (0.11) | 6.62 (0.10) | 6.73 (0.11) | 6.85 (0.13) | 6.92 (0.13) | 6.83 (0.12) | |
| 4 | 6.36 (0.08) | 6.48 (0.09) | 6.55 (0.10) | 7.08 (0.16) | 7.18 (0.17) | 7.02 (0.15) | 7.08 (0.16) | 6.85 (0.13) | |
| 5 | 6.42 (0.09) | 6.61 (0.10) | 6.55 (0.10) | 6.83 (0.12) | 6.94 (0.14) | 6.79 (0.12) | 6.97 (0.14) | 6.92 (0.13) | |
| 6 | 6.47 (0.09) | 6.58 (0.10) | 6.79 (0.12) | 6.87 (0.13) | 7.26 (0.18) | 6.89 (0.13) | 7.05 (0.15) | 7.02 (0.15) | |
| 7 | 6.58 (0.10) | 6.42 (0.09) | 6.70 (0.11) | 6.85 (0.13) | 6.81 (0.12) | 6.83 (0.12) | 6.73 (0.11) | 6.77 (0.12) | |
Error estimates from the simulation are given in parentheses.